Order	SeqName	SeqType	IsAE	Lum_Epi	Lum_Epi2	Myo_Epi	Myo_Epi2	hESCs	StemLike	vHMECs
1	CUX1	Gene	0	28.56	44.93	50.18	59.28	47.68	47.35	97.28
2	360264	Transcript	0	0	0	0	0	0	0	0
3	338990	Transcript	0	11.03	26.51	9.37	38.44	7.49	20.66	13.14
4	393824	Transcript	0	0.00	0.00	0.00	1.49	0.00	1.66	0.69
5	292538	Transcript	1	25.83	29.76	33.67	36.35	81.20	46.47	188.38
6	292535	Transcript	1	10.17	8.60	18.11	14.07	5.65	14.45	11.00
7	ER1a	ExonRegion	0	28.02	43.47	74.51	65.88	116.36	45.45	144.39
8	E1a_E3a	KnownJunction	0	23.68	40.04	64.90	57.49	33.22	50.36	123.69
9	ER2a	ExonRegion	0	0.00	0.23	1.58	0.18	2.10	2.24	2.18
10	E2a_E3a	KnownJunction	0	0.00	1.16	2.82	1.11	3.18	2.41	3.28
11	I2_SR2	SilentIntronRegion	0	20.44	2.95	13.04	2.91	10.91	2.16	3.76
12	I2_AR2	ActiveIntronRegion	0	4.82	0.84	4.83	1.25	10.46	0.00	2.37
13	I2_AR3	ActiveIntronRegion	0	14.28	5.72	12.98	1.25	18.46	1.23	3.43
14	I2_AR4	ActiveIntronRegion	0	16.89	8.71	14.74	2.84	15.39	3.41	5.55
15	I2_SR4	SilentIntronRegion	0	16.71	8.01	14.54	5.69	15.21	4.79	2.76
16	I2_AR5	ActiveIntronRegion	0	17.23	5.53	15.78	2.15	12.73	3.28	6.53
17	I2_SR5	SilentIntronRegion	0	10.70	3.66	7.73	2.29	9.79	2.61	4.06
18	I2_AR6	ActiveIntronRegion	0	23.41	5.51	16.84	0.83	9.88	2.45	7.15
19	I2_AR7	ActiveIntronRegion	0	21.39	8.61	14.17	0.94	9.99	2.25	7.98
20	I2_AR8	ActiveIntronRegion	0	18.24	8.57	14.23	1.25	10.53	0.00	6.78
21	I2_AR9	ActiveIntronRegion	0	12.35	8.02	12.83	1.25	7.13	0.00	4.81
22	I2_AR10	ActiveIntronRegion	0	12.62	7.59	12.53	1.25	6.95	0.20	5.17
23	I2_AR11	ActiveIntronRegion	0	10.34	5.54	6.04	3.10	10.80	2.45	5.36
24	I2_AR14	ActiveIntronRegion	1	13.92	2.38	5.29	2.74	7.61	1.07	3.33
25	I2_AR17	ActiveIntronRegion	0	14.43	6.10	9.95	5.65	11.59	4.24	8.56
26	I2_AR18	ActiveIntronRegion	0	16.72	5.67	10.47	2.82	14.75	4.36	6.10
27	ER3a	ExonRegion	0	21.53	44.86	38.01	53.21	31.31	47.04	103.28
28	E3a_E4a	KnownJunction	0	41.91	60.32	64.24	77.78	49.75	73.43	181.21
29	I3_AR8	ActiveIntronRegion	0	14.04	5.41	6.47	1.52	12.51	1.67	3.27
30	I3_SR9	SilentIntronRegion	0	8.22	4.80	8.25	2.25	12.83	2.60	7.09
31	I3_AR15	ActiveIntronRegion	0	10.75	7.21	4.03	3.18	12.12	1.61	6.88
32	I3_AR18	ActiveIntronRegion	0	10.65	2.26	8.13	0.51	11.12	1.23	3.04
33	I3_AR19	ActiveIntronRegion	0	16.33	4.91	11.88	1.92	18.63	1.23	5.00
34	I3_AR20	ActiveIntronRegion	0	19.54	6.07	12.19	2.49	19.67	1.23	6.36
35	I3_AR21	ActiveIntronRegion	1	20.02	6.33	8.75	3.64	20.06	3.58	8.88
36	I3_AR23	ActiveIntronRegion	0	13.62	6.96	9.07	4.13	12.36	4.38	5.76
37	I3_AR25	ActiveIntronRegion	1	5.54	9.43	5.61	0.86	6.31	2.17	5.25
38	ER4a	ExonRegion	0	49.87	57.98	120.56	80.22	63.52	67.66	213.07
39	E4a_E5a	KnownJunction	0	38.75	57.48	120.21	63.04	99.91	51.27	179.50
40	ER5a	ExonRegion	0	46.40	76.52	112.57	74.93	165.72	89.02	219.58
41	E5a_E6a	KnownJunction	0	50.50	90.35	90.63	69.92	77.94	105.19	178.97
42	ER6a	ExonRegion	0	53.07	94.52	129.70	98.27	90.81	97.32	214.87
43	E6a_E7a	KnownJunction	0	75.34	116.70	170.35	119.69	83.68	119.29	275.39
44	ER7a	ExonRegion	0	68.15	106.21	152.47	125.40	94.54	99.77	248.88
45	E7a_E8a	KnownJunction	0	41.99	87.01	129.51	115.65	108.65	72.57	202.80
46	ER8a	ExonRegion	0	65.91	84.09	155.67	120.63	139.87	86.87	248.49
47	E8a_E9a	KnownJunction	0	69.85	57.90	151.19	89.97	125.02	80.24	232.26
48	ER9a	ExonRegion	0	60.56	79.00	142.44	90.62	136.55	81.26	231.91
49	E9_Da	NovelBoundary	1	8.68	9.69	15.94	4.01	9.94	3.78	3.24
50	E9a_E10a	KnownJunction	0	35.05	70.49	99.86	86.56	137.95	81.07	189.63
51	I9_AR17	ActiveIntronRegion	1	5.06	1.53	11.40	2.40	4.05	10.39	2.49
52	ER10a	ExonRegion	0	51.58	86.08	110.26	104.06	138.73	70.63	220.78
53	E10a_E11a	KnownJunction	0	49.34	85.70	93.19	90.16	119.62	51.96	202.56
54	ER11a	ExonRegion	0	45.33	75.85	100.21	101.99	106.65	80.81	203.26
55	E11a_E12a	KnownJunction	0	23.08	70.41	79.47	82.98	82.64	48.00	160.54
56	ER12a	ExonRegion	0	40.71	72.51	83.28	93.15	119.91	64.86	187.40
57	E12a_E13a	KnownJunction	0	38.00	88.69	84.73	96.28	83.04	67.11	167.28
58	ER13a	ExonRegion	0	45.23	96.84	89.76	105.72	116.36	65.91	216.34
59	E13a_E14a	KnownJunction	0	44.85	103.12	84.74	114.35	155.91	64.59	218.50
60	ER14a	ExonRegion	0	46.67	91.86	82.79	124.67	121.64	62.65	212.46
61	E14a_E15a	KnownJunction	0	35.30	59.77	65.23	103.79	82.69	49.26	171.39
62	ER15a	ExonRegion	0	40.01	53.35	67.09	82.20	94.61	46.20	154.50
63	E15a_E16a	KnownJunction	0	9.15	26.56	23.51	28.45	10.86	27.58	22.80
64	E15a_E26a	KnownJunction	0	17.31	10.98	26.21	27.39	77.99	19.46	108.53
65	ER16a	ExonRegion	0	28.36	49.88	54.51	68.71	29.22	45.31	50.45
66	E16a_E17a	KnownJunction	0	26.20	44.50	63.40	66.89	25.10	30.07	66.44
67	E16a_E18a	KnownJunction	0	11.03	26.51	9.37	38.44	7.49	20.66	13.14
68	E16a_E19a	KnownJunction	0	0.00	0.00	0.00	1.49	0.00	1.66	0.69
69	ER17a	ExonRegion	0	27.65	50.77	58.20	62.03	32.47	35.59	66.16
70	E17a_E18a	KnownJunction	0	26.30	51.65	51.89	45.11	47.44	27.31	63.92
71	ER18a	ExonRegion	0	35.93	65.67	76.33	98.94	33.92	52.25	81.79
72	E18a_E19a	KnownJunction	0	23.40	73.17	77.66	67.75	31.93	65.61	63.66
73	ER19a	ExonRegion	0	23.72	48.56	36.41	64.06	20.21	41.64	42.97
74	E19a_E20a	KnownJunction	0	42.41	82.36	57.22	106.93	43.39	42.93	71.61
75	E19a_E21a	NovelJunction	0	0.00	1.00	2.74	9.75	0.00	8.71	0.00
76	ER20a	ExonRegion	0	49.13	78.35	63.16	110.72	47.47	58.97	86.48
77	E20a_E21a	KnownJunction	0	48.30	79.55	60.76	99.34	39.51	56.41	93.78
78	ER21a	ExonRegion	0	45.46	75.68	63.09	109.38	38.69	72.31	86.64
79	E21a_E22a	KnownJunction	0	40.62	62.92	50.71	105.28	37.02	77.99	61.51
80	ER22a	ExonRegion	0	22.18	51.24	36.58	74.51	25.21	55.61	55.35
81	E22a_E23a	KnownJunction	0	19.99	58.66	48.82	79.08	28.38	60.67	53.70
82	ER23a	ExonRegion	0	26.58	58.53	46.55	94.60	21.36	63.61	69.76
83	E23a_E24a	KnownJunction	0	28.57	50.81	73.36	86.94	22.96	65.93	74.09
84	ER24a	ExonRegion	0	21.35	46.02	37.63	70.60	17.30	59.35	55.28
85	E24a_E25a	KnownJunction	0	19.73	48.94	18.97	76.37	12.31	72.98	42.69
86	ER25a	ExonRegion	0	5.31	15.50	5.33	23.80	2.58	18.24	11.74
87	E25_Da	KnownBoundary	0	5.22	13.16	4.68	29.18	0.92	24.95	7.82
88	ER25b	ExonRegion	1	30.50	24.42	49.92	40.91	11.66	38.72	27.53
89	E25_Db	NovelBoundary	1	19.89	34.02	24.03	57.03	9.87	51.16	8.80
90	I25	Intron	0	17.87	16.66	31.87	28.75	18.81	22.27	29.90
91	I25_AR2	ActiveIntronRegion	0	36.76	29.86	51.46	49.00	33.10	41.66	48.62
92	I25_SR2	SilentIntronRegion	0	18.20	5.94	22.97	13.97	12.44	11.29	16.98
93	I25_AR3	ActiveIntronRegion	0	31.88	30.55	59.39	52.62	34.47	39.82	56.04
94	ER26a	ExonRegion	1	17.49	24.95	24.75	31.63	63.55	24.87	129.07
95	E26a_E27a	KnownJunction	1	30.04	17.26	29.24	32.67	61.76	29.27	171.25
96	ER27a	ExonRegion	1	26.10	24.93	30.53	29.85	63.47	38.37	154.55
97	E27a_E28a	KnownJunction	1	19.93	29.53	30.88	25.68	47.53	45.75	136.44
98	ER28a	ExonRegion	1	24.34	26.78	31.32	32.20	65.93	42.64	148.03
99	E28a_E29a	KnownJunction	1	28.21	18.47	43.76	45.59	68.10	45.83	163.36
100	ER29a	ExonRegion	1	24.31	22.18	34.40	38.10	73.19	51.52	157.20
101	E29a_E30a	KnownJunction	1	26.80	15.37	26.73	34.41	60.08	42.88	139.76
102	ER30a	ExonRegion	1	19.88	24.79	29.35	36.00	90.69	42.11	184.27
103	E30a_E31a	KnownJunction	1	22.36	28.37	31.30	39.23	60.12	53.28	193.89
104	ER31a	ExonRegion	1	24.51	33.50	31.96	31.02	102.25	62.25	225.50
105	E31a_E32a	KnownJunction	1	25.02	24.17	35.38	22.70	105.86	60.97	242.87
106	ER32a	ExonRegion	1	29.10	39.66	38.07	40.83	101.94	56.91	255.83
107	E32a_E33a	KnownJunction	1	38.50	49.34	39.03	53.56	93.83	47.22	299.23
108	ER33a	ExonRegion	1	36.20	57.68	40.92	53.27	112.37	66.54	291.40
109	E33a_E34a	KnownJunction	1	28.57	50.97	44.23	45.27	136.22	66.79	234.66
110	ER34a	ExonRegion	1	26.34	36.70	38.01	34.94	76.74	39.90	154.90